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data.json

@@ -75702,33 +75702,6 @@
     "topics": [],
     "updated_at": 1688255879.0
   },
-  {
-    "config_readme": "## Workflow overview\n\nThis workflow is a best-practice workflow for `<detailed description>`.\nThe workflow is built using [snakemake](https://snakemake.readthedocs.io/en/stable/) and consists of the following steps:\n\n1. Download genome reference from NCBI\n2. Validate downloaded genome (`python` script)\n3. Simulate short read sequencing data on the fly (`dwgsim`)\n4. Check quality of input read data (`FastQC`)\n5. Collect statistics from tool output (`MultiQC`)\n\n## Running the workflow\n\n### Input data\n\nThis template workflow creates artificial sequencing data in `*.fastq.gz` format.\nIt does not contain actual input data.\nThe simulated input files are nevertheless created based on a mandatory table linked in the `config.yaml` file (default: `.test/samples.tsv`).\nThe sample sheet has the following layout:\n\n| sample  | condition | replicate | read1                      | read2                      |\n| ------- | --------- | --------- | -------------------------- | -------------------------- |\n| sample1 | wild_type | 1         | sample1.bwa.read1.fastq.gz | sample1.bwa.read2.fastq.gz |\n| sample2 | wild_type | 2         | sample2.bwa.read1.fastq.gz | sample2.bwa.read2.fastq.gz |\n\n### Parameters\n\nThis table lists all parameters that can be used to run the workflow.\n\n| parameter          | type | details                               | default                        |\n| ------------------ | ---- | ------------------------------------- | ------------------------------ |\n| **samplesheet**    |      |                                       |                                |\n| path               | str  | path to samplesheet, mandatory        | \"config/samples.tsv\"           |\n| **get_genome**     |      |                                       |                                |\n| ncbi_ftp           | str  | link to a genome on NCBI's FTP server | link to _S. cerevisiae_ genome |\n| **simulate_reads** |      |                                       |                                |\n| read_length        | num  | length of target reads in bp          | 100                            |\n| read_number        | num  | number of total reads to be simulated | 10000                          |\n",
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-    "formatting": "[DEBUG] \n[DEBUG] In file \"/tmp/tmp9shh9ecc/workflow/rules/util_fns.smk\":  Formatted content is different from original\n[DEBUG] \n[DEBUG] In file \"/tmp/tmp9shh9ecc/workflow/rules/common.smk\":  Formatted content is different from original\n[DEBUG] \n[DEBUG] In file \"/tmp/tmp9shh9ecc/workflow/rules/radar_processing.smk\":  Formatted content is different from original\n[DEBUG] \n[DEBUG] In file \"/tmp/tmp9shh9ecc/workflow/Snakefile\":  Formatted content is different from original\n[INFO] 4 file(s) would be changed \ud83d\ude2c\n\nsnakefmt version: 0.11.2",
-    "full_name": "thomasteisberg/xopr-snakemake-demo",
-    "latest_release": null,
-    "linting": null,
-    "mandatory_flags": {
-      "desc": null,
-      "flags": null
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-    "non_standardized_reason": null,
-    "report": false,
-    "software_stack_deployment": {
-      "apptainer": true,
-      "apptainer+conda": true,
-      "conda": true,
-      "report": true
-    },
-    "standardized": true,
-    "stargazers_count": 0,
-    "subscribers_count": 0,
-    "topics": [],
-    "updated_at": 1760400630.0,
-    "wrappers": {}
-  },
   {
     "config_readme": null,
     "data_format": 2,
@@ -77250,28 +77223,6 @@
     "topics": [],
     "updated_at": 1617236099.0
   },
-  {
-    "config_readme": null,
-    "data_format": 2,
-    "description": null,
-    "formatting": null,
-    "full_name": "tucca-cellag/HPC-Species-Proteome-and-BLAST-Analysis-Pipeline",
-    "latest_release": null,
-    "linting": "KeyError in file \"/tmp/tmpvky35b6s/workflow/Snakefile\", line 9:\n'species_csv'\n  File \"/tmp/tmpvky35b6s/workflow/Snakefile\", line 9, in <module>\n",
-    "mandatory_flags": [],
-    "non_standardized_reason": [
-      "no .snakemake-workflow-catalog.yml found in repo root",
-      "no config/README.md found in repo root"
-    ],
-    "report": false,
-    "software_stack_deployment": null,
-    "standardized": false,
-    "stargazers_count": 1,
-    "subscribers_count": 0,
-    "topics": [],
-    "updated_at": 1760034176.0,
-    "wrappers": {}
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     "data_format": 2,